Vanessa Mayorga-Martino, Madina Mansurova, Erika Calla-Quispe, Alfredo J Ibáñez
{"title":"Unlocking the Secrets of Insects: The Role of Mass Spectrometry to Understand the Life of Insects.","authors":"Vanessa Mayorga-Martino, Madina Mansurova, Erika Calla-Quispe, Alfredo J Ibáñez","doi":"10.1002/mas.21922","DOIUrl":"https://doi.org/10.1002/mas.21922","url":null,"abstract":"<p><p>Chemical signaling is crucial during the insect lifespan, significantly affecting their survival, reproduction, and ecological interactions. Unfortunately, most chemical signals insects use are impossible for humans to perceive directly. Hence, mass spectrometry has become a vital tool by offering vital insight into the underlying chemical and biochemical processes in various variety of insect activities, such as communication, mate recognition, mating behavior, and adaptation (defense/attack mechanisms), among others. Here, we review different mass spectrometry-based strategies used to gain a deeper understanding of the chemicals involved in shaping the complex behaviors among insects and mass spectrometry-based research in insects that have direct impact in global economic activities.</p>","PeriodicalId":206,"journal":{"name":"Mass Spectrometry Reviews","volume":" ","pages":""},"PeriodicalIF":6.9,"publicationDate":"2024-12-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142826821","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Nicholas E Manicke, Lahiru Wedasingha, Magnus Rydberg
{"title":"Electrokinetic Manipulations Combined With Direct and Ambient Ionization Mass Spectrometry.","authors":"Nicholas E Manicke, Lahiru Wedasingha, Magnus Rydberg","doi":"10.1002/mas.21921","DOIUrl":"https://doi.org/10.1002/mas.21921","url":null,"abstract":"<p><p>Mass spectrometry (MS) is a powerful analytical technique that typically involves sample preparation and online analytical separation before MS detection. Traditional methods often face bottlenecks in sample preparation and analytical separation, despite the rapid detection capabilities of MS. This review explores the integration of electrokinetic manipulations directly with the ionization step to enhance MS performance, focusing on methods that eliminate or simplify sample preparation and separation processes. Techniques such as paper spray, electrophoresis in nanoelectrospray ionization (nESI) emitters, induced nESI, counterflow gradient electrofocusing, and in-syringe electrokinetics are highlighted for their ability to combine extraction and ionization in a single step, significantly improving throughput. The review delves into the use of electric fields during sample preparation and separations for these methods, demonstrating the efficiency of electrophoretic methods in driving extractions, crude separations, desalting, and enhanced sensitivity. The integration of these methods directly with MS ionization aims to enhance the analytical capabilities of mass spectrometry, while reducing costs and increasing throughput relative to traditional approaches.</p>","PeriodicalId":206,"journal":{"name":"Mass Spectrometry Reviews","volume":" ","pages":""},"PeriodicalIF":6.9,"publicationDate":"2024-12-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142826818","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Szu-Hsueh Lai, Sylvain Maclot, Rodolphe Antoine, Christophe D Masselon
{"title":"Advances in Single Particle Mass Analysis.","authors":"Szu-Hsueh Lai, Sylvain Maclot, Rodolphe Antoine, Christophe D Masselon","doi":"10.1002/mas.21920","DOIUrl":"https://doi.org/10.1002/mas.21920","url":null,"abstract":"<p><p>Single particle mass analysis methods allow the measurement and characterization of individual nanoparticles, viral particles, as well as biomolecules like protein aggregates and complexes. Several key benefits are associated with the ability to analyze individual particles rather than bulk samples, such as high sensitivity and low detection limits, and virtually unlimited dynamic range, as this figure of merit strictly depends on analysis time. However, data processing and interpretation of single particle data can be complex, often requiring advanced algorithms and machine learning approaches. In addition, particle ionization, transfer, and detection efficiency can be limiting factors for certain types of analytes. Ongoing developments in the field aim to address these challenges and expand the capabilities of single particle mass analysis techniques. Charge detection mass spectrometry is a single particle version of mass spectrometry in which the charge (z) is determine independently from m/z. Nano-electromechanical resonator mass analysis relies on changes in a nanoscale device's resonance frequency upon deposition of a particle to directly derive its inertial mass. Mass photometry uses interferometric video-microscopy to derive particle mass from the intensity of the scattered light. A common feature of these approaches is the acquisition of single particle data, which can be filtered and concatenated in the form of a particle mass distribution. In the present article, dedicated to our honored colleague Richard Cole, we cover the latest technological advances and applications of these single particle mass analysis approaches.</p>","PeriodicalId":206,"journal":{"name":"Mass Spectrometry Reviews","volume":" ","pages":""},"PeriodicalIF":6.9,"publicationDate":"2024-12-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142793968","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Laurent Debrauwer, Loic Mervant, Olivier Laprevote, Emilien L Jamin
{"title":"Pivotal Role of Mass Spectrometry for the Assessment of Exposure to Reactive Chemical Contaminants: From the Exposome to the Adductome.","authors":"Laurent Debrauwer, Loic Mervant, Olivier Laprevote, Emilien L Jamin","doi":"10.1002/mas.21917","DOIUrl":"https://doi.org/10.1002/mas.21917","url":null,"abstract":"<p><p>A large part of the Human chemical exposome is now well characterized, and its health effects has been widely documented, although precise causal links remain difficult to establish. In parallel, genetic factors only were shown to contribute less than 30% to various pathologies. Therefore, environmental factors may represent the predominant cause of chronic diseases. Mass Spectrometry has been established for many years as a main \"gold standard\" in this field due to its performances both in sensitivity and selectivity. However, some unstable or highly reactive compounds may escape their detection in the biological samples because of their short half-life although some of their stable metabolites, if any, can be used for the exposure assessment. These electrophilic molecules are known to bind covalently to nucleophilic molecules in the body to form what are commonly called adducts. The study of adducts formed with DNA, proteins or with glutathione, nowadays called adductomics, can provide additional toxicologically relevant information in biomonitoring studies. This review describes this particular part of the reactive exposome and the related mass spectrometric methods developed therein. Three dedicated parts of this review are devoted to the contribution of mass spectrometry respectively to the assessment of DNA modifications, protein modifications, and reaction with glutathione.</p>","PeriodicalId":206,"journal":{"name":"Mass Spectrometry Reviews","volume":" ","pages":""},"PeriodicalIF":6.9,"publicationDate":"2024-12-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142764737","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Wout Bittremieux, Varun Ananth, William E Fondrie, Carlo Melendez, Marina Pominova, Justin Sanders, Bo Wen, Melih Yilmaz, William S Noble
{"title":"Deep Learning Methods for De Novo Peptide Sequencing.","authors":"Wout Bittremieux, Varun Ananth, William E Fondrie, Carlo Melendez, Marina Pominova, Justin Sanders, Bo Wen, Melih Yilmaz, William S Noble","doi":"10.1002/mas.21919","DOIUrl":"https://doi.org/10.1002/mas.21919","url":null,"abstract":"<p><p>Protein tandem mass spectrometry data are most often interpreted by matching observed mass spectra to a protein database derived from the reference genome of the sample being analyzed. In many application domains, however, a relevant protein database is unavailable or incomplete, and in such settings de novo sequencing is required. Since the introduction of the DeepNovo algorithm in 2017, the field of de novo sequencing has been dominated by deep learning methods, which use large amounts of labeled mass spectrometry data to train multi-layer neural networks to translate from observed mass spectra to corresponding peptide sequences. Here, we describe these deep learning methods, outline procedures for evaluating their performance, and discuss the challenges in the field, both in terms of methods development and evaluation protocols.</p>","PeriodicalId":206,"journal":{"name":"Mass Spectrometry Reviews","volume":" ","pages":""},"PeriodicalIF":6.9,"publicationDate":"2024-11-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142749501","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Recent Advancements in the Characterization of D-Amino Acid and Isoaspartate Post-Translational Modifications.","authors":"Samuel Okyem, Jonathan V Sweedler","doi":"10.1002/mas.21916","DOIUrl":"10.1002/mas.21916","url":null,"abstract":"<p><p>One of the great triumphs of mass spectrometry-based peptide and protein characterization is the characterization of their modifications as most modifications have a characteristic mass shift. What happens when the modification does not change the mass of the peptide? Here, the characterization of several peptide and proteins modifications that do not involve a mass shift are highlighted. Protein and peptide synthesis on ribosomes involves L-amino acids; however, posttranslational modifications (PTMs) can convert these L-amino acids into their D-isomers. As another example, nonenzymatic PTM of aspartate leads to the formation of three different isomers, with isoaspartate being the most prevalent. Both modifications do not alter the mass of the peptide and yet can have profound impact on the physicochemical characteristics of the peptide. Several MS and ion mobility techniques are highlighted, as are other methods such as chromatography, enzymatic enrichment, and labeling. The challenges inherent to these analytical methods and prospective developments in bioinformatics and computational strategies are discussed for these zero-dalton PTMs.</p>","PeriodicalId":206,"journal":{"name":"Mass Spectrometry Reviews","volume":" ","pages":""},"PeriodicalIF":6.9,"publicationDate":"2024-11-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142666172","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Postionization Mass Spectrometry Imaging: Past, Present, and Future.","authors":"Xiaokang Guan, Qiao Lu, Shuxian Liu, Xiaowen Yan","doi":"10.1002/mas.21918","DOIUrl":"10.1002/mas.21918","url":null,"abstract":"<p><p>Mass spectrometry imaging (MSI) technologies are widely used today to study the in situ spatial distributions for a variety of analytes. As these technologies advance, the pursuit of higher resolution in MSI has intensified. The limitation of direct desorption/ionization is its insufficient ionization, posing a constraint on the advancement of high-resolution MSI technologies. The introduction of postionization process compensates the low ionization efficiency caused by sacrificing the desorption area while pursuing high spatial resolution, resolving the conflict between high spatial resolution and high sensitivity in direct desorption/ionization method. Here, we discuss the sampling and ionization steps of MSI separately, and review the postionization methods in MSI according to three different sampling modes: laser sampling, probe sampling, and ion beam sampling. Postionization technology excels in enhancing ionization efficiency, boosting sensitivity, mitigating discrimination effect, simplifying sample preparation, and expanding the scope of applicability. These advantages position postionization technology as a promising tool for biomedical sciences, materials sciences, forensic analysis and other fields.</p>","PeriodicalId":206,"journal":{"name":"Mass Spectrometry Reviews","volume":" ","pages":""},"PeriodicalIF":6.9,"publicationDate":"2024-11-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142666170","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Bubble-Assisted Sample Preparation Techniques for Mass Spectrometry.","authors":"Decibel P Elpa, Pawel L Urban","doi":"10.1002/mas.21913","DOIUrl":"https://doi.org/10.1002/mas.21913","url":null,"abstract":"<p><p>This review delves into the efficacy of utilizing bubbles to extract analytes into the gas phase, offering a faster and greener alternative to traditional sample preparation methods for mass spectrometry. Generating numerous bubbles in liquids rapidly transfers volatile and surface-active species to the gas phase. Recently, effervescence has found application in chemical laboratories for swiftly extracting volatile organic compounds, facilitating instantaneous analysis. In the so-called fizzy extraction, liquid matrices are pressurized with gas and then subjected to sudden decompression to induce effervescence. Alternatively, specifically designed effervescent tablets are introduced into the liquid samples. In situ bubble generation has also enhanced dispersion of extractant in microextraction techniques. Furthermore, droplets from bursting bubbles are collected to analyze non-volatile species. Various methods exist to induce bubbling for sample preparation. The polydispersity of generated bubbles and the limited control of bubble size pose critical challenges in the stability of the bubble-liquid interface and the ability to quantify analytes using bubble-based sample preparation techniques. This review covers different bubble-assisted sample preparation methods and gives practical guidance on their implementation in mass spectrometry workflows. Traditional, offline, and online approaches for sample preparation relying on bubbles are discussed. Unconventional bubbling techniques for sample preparation are also covered.</p>","PeriodicalId":206,"journal":{"name":"Mass Spectrometry Reviews","volume":" ","pages":""},"PeriodicalIF":6.9,"publicationDate":"2024-11-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142613263","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
A N Verenchikov, V V Makarov, A V Vorobyev, S N Kirillov
{"title":"A Perspective of Multi-Reflecting TOF MS.","authors":"A N Verenchikov, V V Makarov, A V Vorobyev, S N Kirillov","doi":"10.1002/mas.21915","DOIUrl":"https://doi.org/10.1002/mas.21915","url":null,"abstract":"<p><p>Time-of-flight mass spectrometry (TOF MS) excels in rapid and high-sensitivity analysis, making it a cornerstone of analytical chemistry. But as sample complexity explodes in omics studies, so does the need for higher resolving power to ensure accurate results. Traditional TOF instruments face a challenge: achieving high resolution often requires a very large instrument. To overcome this limitation, scientists developed alternative designs for TOF analyzers called multi-pass TOF analyzers (MPT). These MPT analyzers come in two main configurations: multi-turn (MTT) and multi-reflecting (MRT). Drawing on the authors' extensive experience, this review describes two decades of MPT advancements. It highlights the critical development of optimized analyzer designs, tracing the evolution towards mirror-based MRT instruments, generally providing superior resolution and spatial acceptance compared to MTT. While the manuscript attempts to overview MTT advances, it primarily focuses on MRT technology. Additionally, the review explores the role of orthogonal accelerators and trap pulse converters, comparing their efficiency and the dynamic range limits imposed by space charge effects. By comparing various MRT configurations and commercially available instruments, the review sets out to inform and empower researchers so they can make informed decisions about MRT mass spectrometers.</p>","PeriodicalId":206,"journal":{"name":"Mass Spectrometry Reviews","volume":" ","pages":""},"PeriodicalIF":6.9,"publicationDate":"2024-11-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142613259","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
Sofian Al Shboul, Ashita Singh, Renata Kobetic, David R Goodlett, Paul M Brennan, Ted Hupp, Irena Dapic
{"title":"Mass Spectrometry Advances in Analysis of Glioblastoma.","authors":"Sofian Al Shboul, Ashita Singh, Renata Kobetic, David R Goodlett, Paul M Brennan, Ted Hupp, Irena Dapic","doi":"10.1002/mas.21912","DOIUrl":"https://doi.org/10.1002/mas.21912","url":null,"abstract":"<p><p>Some cancers such as glioblastoma (GBM), show minimal response to medical interventions, often only capable of mitigating tumor growth or alleviating symptoms. High metabolic activity in the tumor microenvironment marked by immune responses and hypoxia, is a crucial factor driving tumor progression. The many developments in mass spectrometry (MS) over the last decades have provided a pivotal tool for studying proteins, along with their posttranslational modifications. It is known that the proteomic landscape of GBM comprises a wide range of proteins involved in cell proliferation, survival, migration, and immune evasion. Combination of MS imaging and microscopy has potential to reveal the spatial and molecular characteristics of pathological tissue sections. Moreover, integration of MS in the surgical process in form of techniques such as DESI-MS or rapid evaporative ionization MS has been shown as an effective tool for rapid measurement of metabolite profiles, providing detailed information within seconds. In immunotherapy-related research, MS plays an indispensable role in detection and targeting of cancer antigens which serve as a base for antigen-specific therapies. In this review, we aim to provide detailed information on molecular profile in GBM and to discuss recent MS advances and their clinical benefits for targeting this aggressive disease.</p>","PeriodicalId":206,"journal":{"name":"Mass Spectrometry Reviews","volume":" ","pages":""},"PeriodicalIF":6.9,"publicationDate":"2024-11-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142613270","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"化学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}